{"id":"https://openalex.org/W2141239733","doi":"https://doi.org/10.1093/bioinformatics/btg027","title":"Dynamic modeling of genetic networks using genetic algorithmand S-system","display_name":"Dynamic modeling of genetic networks using genetic algorithmand S-system","publication_year":2003,"publication_date":"2003-03-21","ids":{"openalex":"https://openalex.org/W2141239733","doi":"https://doi.org/10.1093/bioinformatics/btg027","mag":"2141239733","pmid":"https://pubmed.ncbi.nlm.nih.gov/12651723"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btg027","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btg027","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/19/5/643/48904138/bioinformatics_19_5_643.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/19/5/643/48904138/bioinformatics_19_5_643.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5113533702","display_name":"Shinichi Kikuchi","orcid":null},"institutions":[{"id":"https://openalex.org/I73613424","display_name":"National Institute of Advanced Industrial Science and Technology","ror":"https://ror.org/01703db54","country_code":"JP","type":"government","lineage":["https://openalex.org/I73613424"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Shinichi Kikuchi","raw_affiliation_strings":["Computational Biology Research Center (CBRC), National Institute of Advanced Industrial Science and Technology (AIST), 2-41-6 Aomi, Koto-ku, Tokyo, 135-0064, Japan. kikuchi@sfc.keio.ac.jp","National Institute of Advanced Industrial Science and Techno"],"affiliations":[{"raw_affiliation_string":"Computational Biology Research Center (CBRC), National Institute of Advanced Industrial Science and Technology (AIST), 2-41-6 Aomi, Koto-ku, Tokyo, 135-0064, Japan. kikuchi@sfc.keio.ac.jp","institution_ids":["https://openalex.org/I73613424"]},{"raw_affiliation_string":"National Institute of Advanced Industrial Science and Techno","institution_ids":["https://openalex.org/I73613424"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023105605","display_name":"Daisuke Tominaga","orcid":"https://orcid.org/0000-0003-4390-423X"},"institutions":[{"id":"https://openalex.org/I73613424","display_name":"National Institute of Advanced Industrial Science and Technology","ror":"https://ror.org/01703db54","country_code":"JP","type":"government","lineage":["https://openalex.org/I73613424"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Daisuke Tominaga","raw_affiliation_strings":["National Institute of Advanced Industrial Science and Techno"],"affiliations":[{"raw_affiliation_string":"National Institute of Advanced Industrial Science and Techno","institution_ids":["https://openalex.org/I73613424"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064001841","display_name":"Masanori Arita","orcid":"https://orcid.org/0000-0001-6706-0487"},"institutions":[{"id":"https://openalex.org/I73613424","display_name":"National Institute of Advanced Industrial Science and Technology","ror":"https://ror.org/01703db54","country_code":"JP","type":"government","lineage":["https://openalex.org/I73613424"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Masanori Arita","raw_affiliation_strings":["National Institute of Advanced Industrial Science and Techno"],"affiliations":[{"raw_affiliation_string":"National Institute of Advanced Industrial Science and Techno","institution_ids":["https://openalex.org/I73613424"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111743202","display_name":"Katsutoshi Takahashi","orcid":null},"institutions":[{"id":"https://openalex.org/I73613424","display_name":"National Institute of Advanced Industrial Science and Technology","ror":"https://ror.org/01703db54","country_code":"JP","type":"government","lineage":["https://openalex.org/I73613424"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Katsutoshi Takahashi","raw_affiliation_strings":["National Institute of Advanced Industrial Science and Techno"],"affiliations":[{"raw_affiliation_string":"National Institute of Advanced Industrial Science and Techno","institution_ids":["https://openalex.org/I73613424"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5015575713","display_name":"Masaru Tomita","orcid":"https://orcid.org/0000-0003-3423-377X"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Masaru Tomita","raw_affiliation_strings":["Faculty of Environment and Information Studies"],"affiliations":[{"raw_affiliation_string":"Faculty of Environment and Information Studies","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5113533702"],"corresponding_institution_ids":["https://openalex.org/I73613424"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":9.6083,"has_fulltext":false,"cited_by_count":404,"citation_normalized_percentile":{"value":0.98863069,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"19","issue":"5","first_page":"643","last_page":"650"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9991999864578247,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9969000220298767,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/crossover","display_name":"Crossover","score":0.8285654783248901},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6731528639793396},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.5689940452575684},{"id":"https://openalex.org/keywords/genetic-algorithm","display_name":"Genetic algorithm","score":0.5636467933654785},{"id":"https://openalex.org/keywords/simplex-algorithm","display_name":"Simplex algorithm","score":0.48408734798431396},{"id":"https://openalex.org/keywords/simplex","display_name":"Simplex","score":0.48153191804885864},{"id":"https://openalex.org/keywords/genetic-network","display_name":"Genetic network","score":0.4413270950317383},{"id":"https://openalex.org/keywords/convergence","display_name":"Convergence (economics)","score":0.43051719665527344},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.25728917121887207},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.20678278803825378},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.16319873929023743},{"id":"https://openalex.org/keywords/linear-programming","display_name":"Linear programming","score":0.13496583700180054}],"concepts":[{"id":"https://openalex.org/C122507166","wikidata":"https://www.wikidata.org/wiki/Q628906","display_name":"Crossover","level":2,"score":0.8285654783248901},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6731528639793396},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.5689940452575684},{"id":"https://openalex.org/C8880873","wikidata":"https://www.wikidata.org/wiki/Q187787","display_name":"Genetic algorithm","level":2,"score":0.5636467933654785},{"id":"https://openalex.org/C144521790","wikidata":"https://www.wikidata.org/wiki/Q134164","display_name":"Simplex algorithm","level":3,"score":0.48408734798431396},{"id":"https://openalex.org/C62438384","wikidata":"https://www.wikidata.org/wiki/Q331350","display_name":"Simplex","level":2,"score":0.48153191804885864},{"id":"https://openalex.org/C2986044853","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Genetic network","level":3,"score":0.4413270950317383},{"id":"https://openalex.org/C2777303404","wikidata":"https://www.wikidata.org/wiki/Q759757","display_name":"Convergence (economics)","level":2,"score":0.43051719665527344},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.25728917121887207},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.20678278803825378},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.16319873929023743},{"id":"https://openalex.org/C41045048","wikidata":"https://www.wikidata.org/wiki/Q202843","display_name":"Linear programming","level":2,"score":0.13496583700180054},{"id":"https://openalex.org/C50522688","wikidata":"https://www.wikidata.org/wiki/Q189833","display_name":"Economic growth","level":1,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005246","descriptor_name":"Feedback","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005246","descriptor_name":"Feedback","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005246","descriptor_name":"Feedback","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D008660","descriptor_name":"Metabolism","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D008660","descriptor_name":"Metabolism","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D008660","descriptor_name":"Metabolism","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012680","descriptor_name":"Sensitivity and Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012680","descriptor_name":"Sensitivity and Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012680","descriptor_name":"Sensitivity and Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btg027","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btg027","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/19/5/643/48904138/bioinformatics_19_5_643.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:12651723","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/12651723","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:t2r2.star.titech.ac.jp:50000573","is_oa":false,"landing_page_url":"http://t2r2.star.titech.ac.jp/cgi-bin/publicationinfo.cgi?q_publication_content_number=CTT100507723","pdf_url":null,"source":{"id":"https://openalex.org/S4377196385","display_name":"Tokyo Tech Research Repository (Tokyo Institute of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I114531698","host_organization_name":"Tokyo Institute of Technology","host_organization_lineage":["https://openalex.org/I114531698"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Journal Article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btg027","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btg027","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/19/5/643/48904138/bioinformatics_19_5_643.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2141239733.pdf","grobid_xml":"https://content.openalex.org/works/W2141239733.grobid-xml"},"referenced_works_count":24,"referenced_works":["https://openalex.org/W1901460","https://openalex.org/W47058917","https://openalex.org/W131637771","https://openalex.org/W1482637285","https://openalex.org/W1595036009","https://openalex.org/W1639032689","https://openalex.org/W1844534094","https://openalex.org/W1946177469","https://openalex.org/W2006005484","https://openalex.org/W2010586622","https://openalex.org/W2011873184","https://openalex.org/W2050520895","https://openalex.org/W2058221907","https://openalex.org/W2080573668","https://openalex.org/W2094892902","https://openalex.org/W2113654344","https://openalex.org/W2131067724","https://openalex.org/W2139701068","https://openalex.org/W2155389397","https://openalex.org/W2161037888","https://openalex.org/W2163296727","https://openalex.org/W2166438326","https://openalex.org/W2323926758","https://openalex.org/W2610714868"],"related_works":["https://openalex.org/W2048470382","https://openalex.org/W2384679317","https://openalex.org/W1591528168","https://openalex.org/W2911215968","https://openalex.org/W1583787753","https://openalex.org/W1570109187","https://openalex.org/W2014162767","https://openalex.org/W2139369605","https://openalex.org/W2115729582","https://openalex.org/W2366013513"],"abstract_inverted_index":{"The":[0,27],"proposed":[1],"method":[2],"is":[3],"implemented":[4],"as":[5],"a":[6,64],"C":[7],"program":[8],"called":[9],"PEACE1":[10],"(Predictor":[11],"by":[12],"Evolutionary":[13],"Algorithms":[14],"and":[15,46,76],"Canonical":[16],"Equations":[17],"1).":[18],"Its":[19],"performance":[20],"was":[21,42,53],"compared":[22],"with":[23,69],"the":[24,32,39,48,61],"basic":[25],"method.":[26],"comparison":[28],"showed":[29],"that:":[30],"(1)":[31],"convergence":[33],"rate":[34],"increased":[35,54],"about":[36,44,55],"5-fold;":[37],"(2)":[38],"optimization":[40],"speed":[41],"raised":[43],"1.5-fold;":[45],"(3)":[47],"number":[49],"of":[50,63,83],"predictable":[51],"parameters":[52,71],"5-fold.":[56],"Moreover,":[57],"we":[58],"successfully":[59],"inferred":[60],"dynamics":[62],"small":[65],"genetic":[66],"network":[67,74],"constructed":[68],"60":[70],"for":[72],"5":[73],"variables":[75],"feedback":[77],"loops":[78],"using":[79],"only":[80],"time-course":[81],"data":[82],"gene":[84],"expression.":[85]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":7},{"year":2019,"cited_by_count":9},{"year":2018,"cited_by_count":14},{"year":2017,"cited_by_count":10},{"year":2016,"cited_by_count":10},{"year":2015,"cited_by_count":15},{"year":2014,"cited_by_count":28},{"year":2013,"cited_by_count":37},{"year":2012,"cited_by_count":29}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}
